map_to_func_elem: Functional annotation of significant hotspot residues.

In peterblattmann/DominoEffect: Identification and Annotation of Protein Hotspot Residues

Functional annotation of significant hotspot residues.

Description

This function retrieves Uniprot annotations for th efunctional elements in the proteins with significant hotspots and overlaps and maps the hotspot residues to these.

Usage

  map_to_func_elem(hotspot_results, write_to_file = "NO", ens_release = "109")

Arguments

hotspot_results	Object containining information about the hotspot residues identified using the function identify_hotspots().
write_to_file	A character vector defining whether the resulting annotated hotspots should be saved in a file (YES or NO).
ens_release	A character vector defining whether the default gene annotations are used, i.e. Ensembl release 109, or if the gene_data correspond to a different Ensembl release. For the current Ensembl version this should be set to: ens_release="www.ensembl.org". For the archive versions to the corresponding archive website.

Value

Updated results file containing an additional columns with the information on the annotated functional and structural region within which the mutation is mapped.

Author(s)

Marija Buljan <[e-mail]> Peter Blattmann <[e-mail]>

Examples

data("TestData", package = "DominoEffect")
data("DominoData", package = "DominoEffect")
data("SnpData", package = "DominoEffect")

hotspot_mutations <- identify_hotspots(TestData, DominoData, SnpData)
hotspot_mutations <- map_to_func_elem(hotspot_mutations, 
write_to_file = "NO", ens_release = "109")

head(hotspot_mutations)

peterblattmann/DominoEffect documentation built on Nov. 9, 2023, 2:39 a.m.